Explore DBNascent | browse or search sample metadata
Search
Advanced Search
All Samples
Samples By Dataset
Sample Details
SRR11554704 Sample ID 504
| Paper identifier | Cosby2021recurrent |
| SRP accession | SRP256595 |
| GEO accession | GSE148787 |
| Samples | SRR11554704 |
| QC score | 2 |
| Replicate | 3 |
| Protocol | PRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | reverse |
| Reverse complemented? | True |
| Mapped strandedness | forward |
| Timecourse | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | Yes |
| TDF visualization file | TDF file | 303 Mb |
| Organism | M. velifer |
| Sample type | cell line |
| Cell type | embryonic fibroblast |
| Clone/Individual | rescue clone P4F4 |
| Strain | |
| Genotype | Krabiner endogenous -/-; dox-inducible Krabiner KRAB mut exogenous (stable) |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | Myoluc2.0 closest genome |
| Analysis notes | In db as Cosby2020unpublished until 2/8/21 - all older pipeline reports and out/err scripts reflect that; Can't determine strandedness, extremely messy, genome doesn't match organism and is of poor quality |
| Sample QC score | 2 |
| Sample NRO score | 3 |
| Raw read length | 35 |
| Read depth after trimming | 29,347,670 |
| Duplication proportion | 0.53991 |
| Proportion reads mapped | 0.4204 |
| Exon/intron ratio | 5.10246 |
| Unique read proportion | 0.48466 |
| Total # Tfit bidirectionals | None |
| # Promoter Tfit bidirectionals | None |
| # Intronic Tfit bidirectionals | None |
| # Intergenic Tfit bidirectionals | None |
| Total # dREG bidirectionals | None |
| # Promoter dREG bidirectionals | None |
| # Intronic dREG bidirectionals | None |
| # Intergenic dREG bidirectionals | None |
| Part of Tfit master merge? | False |
| Part of dREG master merge? | False |